BLASTP 2.2.18 [Mar-02-2008] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= 0016.0018.p (146 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300309939|ref|YP_003774031.1| biopolymer transport ExbD/TolR ... 226 8e-61 gi|300310024|ref|YP_003774116.1| biopolymer transport ExbD/TolR ... 147 2e-37 gi|300312126|ref|YP_003776218.1| biopolymer transport ExbD/TolR ... 86 2e-18 gi|300310551|ref|YP_003774643.1| biopolymer transport ExbD/TolR ... 62 2e-11 gi|300310501|ref|YP_003774593.1| biopolymer transport ExbD-relat... 61 4e-11 >gi|300309939|ref|YP_003774031.1| biopolymer transport ExbD/TolR protein [Herbaspirillum seropedicae SmR1] Length = 148 Score = 226 bits (575), Expect = 8e-61, Method: Compositional matrix adjust. Identities = 106/146 (72%), Positives = 126/146 (86%) Query: 1 MSFGGFNDNHQAGPMAEINVTPMVDVMLVLLVIFILSAPLFTHSLQLDLPTAKSAPAPEK 60 MSFGGFNDN + PMA+INVTPMVDVMLVLLVIFI++AP+FTH+L+LDLPTA+SAPAPEK Sbjct: 1 MSFGGFNDNQNSAPMADINVTPMVDVMLVLLVIFIITAPMFTHALKLDLPTAQSAPAPEK 60 Query: 61 PQTVSVSIDAAGKLYWQDQAVTLEELTRRMAEAAGKKPQPEVQLRADKATRYEVIADVMS 120 P+T+++ IDAAGKLYW DQ V+ EEL R+ AAGK+PQPE+QLRADK+TRY+ IA+VMS Sbjct: 61 PETITLGIDAAGKLYWNDQPVSSEELDARLTAAAGKQPQPELQLRADKSTRYQTIAEVMS 120 Query: 121 AAQSNGLNKLGFVTDPKPNTTSTEKK 146 AAQ GL+KLGFVTDPK EKK Sbjct: 121 AAQGAGLSKLGFVTDPKTPAHVQEKK 146 >gi|300310024|ref|YP_003774116.1| biopolymer transport ExbD/TolR protein [Herbaspirillum seropedicae SmR1] Length = 138 Score = 147 bits (372), Expect = 2e-37, Method: Compositional matrix adjust. Identities = 70/137 (51%), Positives = 102/137 (74%), Gaps = 3/137 (2%) Query: 1 MSFGGFND-NHQAGPMAEINVTPMVDVMLVLLVIFILSAPLFTHSLQLDLPTAKSAPAPE 59 M+ G +D + P EIN TP+VDVMLVLL+IFI++ P+ H++++DLP A S P Sbjct: 1 MAMGSLSDSDDDFNP--EINTTPLVDVMLVLLIIFIITIPVMNHAVKIDLPKASSQPDQV 58 Query: 60 KPQTVSVSIDAAGKLYWQDQAVTLEELTRRMAEAAGKKPQPEVQLRADKATRYEVIADVM 119 KP+++++SIDA+G ++W ++ + EL+ R+A AA K+PQPE+ LRA++ T+YE +A VM Sbjct: 59 KPESINLSIDASGNVFWNEEKIDSGELSVRIAAAAQKQPQPELHLRAERTTQYEKVAQVM 118 Query: 120 SAAQSNGLNKLGFVTDP 136 SAAQS GL K+GFVTDP Sbjct: 119 SAAQSGGLAKIGFVTDP 135 >gi|300312126|ref|YP_003776218.1| biopolymer transport ExbD/TolR protein [Herbaspirillum seropedicae SmR1] Length = 139 Score = 85.5 bits (210), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 48/135 (35%), Positives = 75/135 (55%) Query: 6 FNDNHQAGPMAEINVTPMVDVMLVLLVIFILSAPLFTHSLQLDLPTAKSAPAPEKPQTVS 65 ND G EIN+TP++DVMLVLL+IFI++ P ++++ LP A + P + + Sbjct: 4 MNDAGGDGLATEINMTPLIDVMLVLLIIFIVTLPAINQAVKVTLPKATAQPTETASKDID 63 Query: 66 VSIDAAGKLYWQDQAVTLEELTRRMAEAAGKKPQPEVQLRADKATRYEVIADVMSAAQSN 125 +SI A G + W L+EL + AA P V + AD+ Y +A V++ Q+ Sbjct: 64 ISIQADGTVLWNRVPANLDELRAHVVAAAAAAVPPAVNVYADEQVPYGSVAKVLAGVQAG 123 Query: 126 GLNKLGFVTDPKPNT 140 GL+++ FVT+P T Sbjct: 124 GLSRINFVTEPVKET 138 >gi|300310551|ref|YP_003774643.1| biopolymer transport ExbD/TolR protein [Herbaspirillum seropedicae SmR1] Length = 144 Score = 62.0 bits (149), Expect = 2e-11, Method: Compositional matrix adjust. Identities = 40/129 (31%), Positives = 72/129 (55%), Gaps = 11/129 (8%) Query: 16 AEINVTPMVDVMLVLLVIFILSAPLFTHSLQLDLPTAKSAPAPE--------KPQT-VSV 66 +EINV P +DVMLVLL+IF+++ P+ S+ ++LPTA + P KP + ++ Sbjct: 16 SEINVVPYIDVMLVLLIIFMVATPITNPSV-INLPTAGKSTQPPSDYIEIALKPNSQATI 74 Query: 67 SIDAAGKLYWQDQAVTLE-ELTRRMAEAAGKKPQPEVQLRADKATRYEVIADVMSAAQSN 125 I+ + + VT + +L+ R+ + P+ V + ADK +Y+ + V+S A+ Sbjct: 75 RINGPKSGGKKAETVTGKTDLSERLRKLHDDNPELAVMISADKDIKYDEVVQVISEAKKQ 134 Query: 126 GLNKLGFVT 134 G+ ++G T Sbjct: 135 GIARVGLAT 143 >gi|300310501|ref|YP_003774593.1| biopolymer transport ExbD-related transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 142 Score = 61.2 bits (147), Expect = 4e-11, Method: Compositional matrix adjust. Identities = 37/124 (29%), Positives = 70/124 (56%), Gaps = 9/124 (7%) Query: 17 EINVTPMVDVMLVLLVIFILSAPLFTH--SLQLDLPTAKSAPAPEKPQTVSVSIDAAGKL 74 EIN+ P +DV+LV+ VIF++ ++ +LQL LPTA + A E+P +++++DA G+ Sbjct: 13 EINLIPFIDVLLVI-VIFLMVTTTYSKFTALQLTLPTADAPKALEQPFELNIAVDANGRY 71 Query: 75 YWQDQAVT------LEELTRRMAEAAGKKPQPEVQLRADKATRYEVIADVMSAAQSNGLN 128 ++ ++ L E + + A+ K P + + AD ++ + +V+ AA+ G Sbjct: 72 ALNNKRISARDAQGLSEEMQAVVRASASKLDPVIIINADALATHQTVVNVLEAARMAGYP 131 Query: 129 KLGF 132 K+ F Sbjct: 132 KVTF 135 Database: BlastDatabases/689/689 Posted date: Apr 10, 2011 12:15 AM Number of letters in database: 1,619,870 Number of sequences in database: 4735 Lambda K H 0.314 0.128 0.359 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 4735 Number of Hits to DB: 435,844 Number of extensions: 16063 Number of successful extensions: 62 Number of sequences better than 1.0e-08: 5 Number of HSP's gapped: 62 Number of HSP's successfully gapped: 5 Length of query: 146 Length of database: 1,619,870 Length adjustment: 77 Effective length of query: 69 Effective length of database: 1,255,275 Effective search space: 86613975 Effective search space used: 86613975 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.2 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 42 (22.0 bits) S2: 126 (53.1 bits)